Locus 6758

Sequence ID	3L_DroMel_CAF1
Location	18,122,283 – 18,122,377
Length	94
Max. P	0.940286

overview

Window 8

Location	18,122,283 – 18,122,377
Length	94
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	82.25
Mean single sequence MFE	-23.35
Consensus MFE	-18.35
Energy contribution	-18.13
Covariance contribution	-0.22
Combinations/Pair	1.33
Mean z-score	-1.97
Structure conservation index	0.79
SVM decision value	0.68
SVM RNA-class probability	0.819840
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18122283 94 + 23771897
GAAGUGCAGCUCUUCCAUAAAUAAGAGCAGGUGAUGCUACUGGAAAUCCAGCGAGGAAACUGCAUUAAAAGGUAAAUAGAA--UAAGUUAUUAUAU
..(((((((.(((((..........((((.....)))).((((....)))).)))))..)))))))...............--............. ( -21.70)
>DroPse_CAF1 34678 96 + 1
GCAGGGCAGCCCUGCCGUAGAUCAGGGCGGGCGAGGCCACGGGAAAGCCAGUGAGGAAGCUGUUUGGAAAAGGCAAGGAAAAUUUAGUAAAAGUAU
((..(((.((((.(((.(.....).)))))))...))).........((((..((....))..)))).....))...................... ( -25.80)
>DroSec_CAF1 25324 94 + 1
GAAGGGCAGCUCUUCCAUAAAUAAGAGCAGGUGAUGCCACUGGAAAUCCAGCAAGGAAACUGCAUUAAGAAGUAAAUGAAA--UUAGUUAUUAUAU
....(((.((((((........))))))...((((((..((((....))))..((....))))))))..............--...)))....... ( -21.00)
>DroSim_CAF1 22880 94 + 1
GAAGGGCAGCUCUUCCAUAAAUAAGAGCAGGUGAUGCCACUGGAAAUCCAGCGAGGAAACUGCAUUAAAAGGUAAAAGAAA--UUUGUCAUUAAAU
....((((((((((........))))))...(((((((.((((....)))).)((....))))))))..............--..))))....... ( -24.80)
>DroEre_CAF1 26121 92 + 1
GGAGGGCAGCUCUUCCAUAAAUGAGAGCAGGUGAUGCCACUGGAAAUCCAGCGAGGAAGCUGCAUU--AAAGUAAAGGAAG--CUCGUUAUUAUAU
...((((.((((((........))))))...(((((((.((((....)))).)((....)))))))--)...........)--))).......... ( -25.20)
>DroYak_CAF1 26055 94 + 1
GAAGGGCAGCUCUUCCGUAAAUGAGAGCAGGUGAUGCCACUGGAAAGCCAGCGAGGAAACUGCAAUUAAAAGUUAAGGAAA--UUAGUUAUUAUAU
....(((.((((((........)))))).((((....)))).....))).((.((....))))..................--............. ( -21.60)
>consensus
GAAGGGCAGCUCUUCCAUAAAUAAGAGCAGGUGAUGCCACUGGAAAUCCAGCGAGGAAACUGCAUUAAAAAGUAAAGGAAA__UUAGUUAUUAUAU
....(((.((((((........))))))...((((((..((((....))))..((....))))))))...................)))....... (-18.35 = -18.13 +  -0.22)

alignment

secondary structure

dotplot

Window 9

Location	18,122,283 – 18,122,377
Length	94
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	82.25
Mean single sequence MFE	-20.43
Consensus MFE	-17.76
Energy contribution	-17.98
Covariance contribution	0.23
Combinations/Pair	1.22
Mean z-score	-2.31
Structure conservation index	0.87
SVM decision value	1.29
SVM RNA-class probability	0.940286
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18122283 94 - 23771897
AUAUAAUAACUUA--UUCUAUUUACCUUUUAAUGCAGUUUCCUCGCUGGAUUUCCAGUAGCAUCACCUGCUCUUAUUUAUGGAAGAGCUGCACUUC
.............--.................((((((((((..(((((....)))))((((.....)))).........))))..)))))).... ( -21.00)
>DroPse_CAF1 34678 96 - 1
AUACUUUUACUAAAUUUUCCUUGCCUUUUCCAAACAGCUUCCUCACUGGCUUUCCCGUGGCCUCGCCCGCCCUGAUCUACGGCAGGGCUGCCCUGC
..................(((((((..........((((........))))....((.(((...)))))...........)))))))......... ( -18.50)
>DroSec_CAF1 25324 94 - 1
AUAUAAUAACUAA--UUUCAUUUACUUCUUAAUGCAGUUUCCUUGCUGGAUUUCCAGUGGCAUCACCUGCUCUUAUUUAUGGAAGAGCUGCCCUUC
.............--..................(((((((((..(((((....)))))((((.....)))).........))))..)))))..... ( -19.30)
>DroSim_CAF1 22880 94 - 1
AUUUAAUGACAAA--UUUCUUUUACCUUUUAAUGCAGUUUCCUCGCUGGAUUUCCAGUGGCAUCACCUGCUCUUAUUUAUGGAAGAGCUGCCCUUC
.............--..................(((((((((.((((((....))))))(((.....)))..........))))..)))))..... ( -21.00)
>DroEre_CAF1 26121 92 - 1
AUAUAAUAACGAG--CUUCCUUUACUUU--AAUGCAGCUUCCUCGCUGGAUUUCCAGUGGCAUCACCUGCUCUCAUUUAUGGAAGAGCUGCCCUCC
.............--.............--...(((((((((.((((((....))))))(((.....)))..........)))..))))))..... ( -23.10)
>DroYak_CAF1 26055 94 - 1
AUAUAAUAACUAA--UUUCCUUAACUUUUAAUUGCAGUUUCCUCGCUGGCUUUCCAGUGGCAUCACCUGCUCUCAUUUACGGAAGAGCUGCCCUUC
.............--..................(((((((((.((((((....))))))(((.....)))..........))))..)))))..... ( -19.70)
>consensus
AUAUAAUAACUAA__UUUCCUUUACUUUUUAAUGCAGUUUCCUCGCUGGAUUUCCAGUGGCAUCACCUGCUCUUAUUUAUGGAAGAGCUGCCCUUC
.................................(((((((((.((((((....))))))(((.....)))..........)))..))))))..... (-17.76 = -17.98 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:19 2006